Explore
FAQ
About
Ryan York
Affiliation:
Arcadia Science
ORCID:
https://orcid.org/0000-0002-1073-1494
Pubs
Collaborators
Megan L. Hochstrasser
0
Prachee Avasthi
0
Taylor Reiter
0
Audrey Bell
0
Feridun Mert Celebi
0
Adair L. Borges
0
Elizabeth A. McDaniel
0
Seemay Chou
0
David G. Mets
0
Emily C.P. Weiss
0
Austin H. Patton
0
Dennis A. Sun
0
Keith Cheveralls
0
Brae M. Bigge
0
Rachel J. Dutton
0
Erin McGeever
0
Kira E. Poskanzer
0
Cameron Dale MacQuarrie
0
Jase Gehring
0
Tara Essock-Burns
0
Atanas Radkov
0
Harper Wood
0
Robert Roth
0
Ryan Lane
0
Ben Braverman
0
Galo Garcia III
0
David Q. Matus
0
Manon Morin
0
Ilya Kolb
0
Evan Kiefl
0
George Sandler
0
Jonathan A. Eisen
0
Jasmine Neal
0
Wasim Sandhu
0
Isabel Nocedal
0
David S. Booth
0
Alberto Stolfi
0
Rachel Bajema
0
Tanner Fadero
0
Kari Herrington
0
Ubadah Sabbagh
0
0
Distinct spatiotemporal movement properties reveal sub-modalities in crawling cell types
0
_Chlamydomonas cpc1-1_ mutant exhibits unexpected growth phenotypes
0
Discovering shared protein structure signatures connected to polyphosphate accumulation in diverse bacteria
0
Paired residue prediction dependencies in ESM2
0
Designing genome-wide MERFISH probes for understudied species
0
A method for computational discovery of viral structural mimics
0
Putative horizontal gene transfer events point to candidate genes involved in cross-species neuromodulation
0
Raman spectroscopy enables rapid and inexpensive exploration of biology
0
Compound 48/80 is toxic in HMC1.2 and RBL-2H3 cells
0
How confident should we be in potential targets of tick protease inhibitors predicted by AlphaFold-Multimer?
0
The experiment begins: Arcadia publishing 1.0
0
Paired long- and short-read metagenomics of cheese rind microbial communities at multiple time points
0
How can we biochemically validate protein function predictions with the Ras GTPase family?
0
Phenotypic differences between interfertile _Chlamydomonas_ species
0
Early update on Arcadia publishing 2.0: Scientists are in charge, speed is an issue
0
Identification of capsid-like proteins in venomous and parasitic animals
0
Performing mass spectrometry-based proteomics in organisms with minimal reference protein databases
0
ProteinCartography: Comparing proteins with structure-based maps for interactive exploration
0
NovelTree: Highly parallelized phylogenomic inference
0
Speeding up the quality control of raw sequencing data using seqqc, a Nextflow-based solution
0
Harnessing genotype-phenotype nonlinearity to accelerate biological prediction
0
Using protein language models to predict coding and non-coding transcripts with plm-utils
0
A framework for modeling human monogenic diseases by deploying organism selection
0
Predicted genes from the _Amblyomma americanum_ draft genome assembly
0
Streamlining genome assembly and QC with the reads2genome workflow
0
How can we biochemically validate protein function predictions with the deoxycytidine kinase family?
0
A capsid-based search recovers viral sequences from human brain sequencing data
0
Gotta catch ‘em all: Agar microchambers for high-throughput single-cell live imaging
0
Applying information theory to genetics can better explain biological phenomena
0
A new R package, sourmashconsumr, for analyzing and visualizing the outputs of sourmash
0
Modeling human monogenic diseases using the choanoflagellate _Salpingoeca rosetta_
0
Rescuing _Chlamydomonas_ motility in mutants modeling spermatogenic failure
0
The phenotype-o-mat: A flexible tool for collecting visual phenotypes
0
Predicting bioactive peptides from transcriptome assemblies with the peptigate workflow
0
Icebox is a science-sharing strategy designed to encourage risk-taking
0
Label-free neuroimaging in mice captures sensory activity in response to tactile stimuli and acute pain
0
Raman spectra reflect complex phylogenetic relationships
0
Chlorarachniophytes form light- and Arp2/3 complex-dependent extensions that are involved in motility and predation
0
DIY Raman spectroscopy for biological research
0
Creating reproducible workflows for complex computational pipelines
0
Exploring the actin family: A case study for ProteinCartography
0
Predicting peptides from tick salivary glands that suppress host detection
0
The experiment continues: Arcadia publishing 2.0
0
A structurally divergent actin conserved in fungi has no association with specific traits
0
Clustering the NCBI nr database to reduce database size and enable faster BLAST searches
0
Creating a 7,000-strain _E. coli_ genotype dataset with antimicrobial resistance phenotypes
0
Identifying candidate accessory domains by mining putative venom protein fusions
0
Comparative phylogenomic analysis of chelicerates points to gene families associated with long-term suppression of host detection
0
Robust long-read saliva transcriptome and proteome from the lone star tick, _Amblyomma americanum_
0
PreHGT: A scalable workflow that screens for horizontal gene transfer within and between kingdoms
0
A data-driven approach to match organisms and research problems
0
How can we measure and communicate the impact of science?
0
Comparing gene expression across species based on protein structure
0
Isolation of a phage with an arabinosylated genome from a cheese microbial community
0
An experimental and computational workflow to characterize nematode motility behavior
0
Automated classification of time-course imaging data applied to nematode embryogenesis
0
Challenges of isolating bacteriophage mRNA for chemical analysis
0
HiPR-FISH spatial mapping of cheese rind microbial communities
0
_De novo_ assembly of a long-read _Amblyomma americanum_ tick genome
0
A strategy to validate protein function predictions _in vitro_
0
Modeling human monogenic diseases using the tunicate _Ciona intestinalis_
0
Combinatorial indexing and screening of clonal DNA fragments
0
Structure-based protein clustering sometimes, but not always, provides insight into protein function
0
How can we improve upon and expand the scope of our phylogenomic inferences?
0
Microchamber slide design for cell confinement during imaging
0
A workflow to isolate phage DNA and identify nucleosides by HPLC and mass spectrometry
0
A high-throughput imaging approach to track and quantify single-cell swimming
0
Closing the divide between analysis and publication: The notebook pub
0
Streamlining microscopy datasets by enriching for in-focus frames
0
Repeat expansions associated with human disease are present in diverse organisms
0
Inducing protoplast formation in _Phaeodactylum tricornutum_ by silica deprivation, enzymatic treatment, or cytoskeletal inhibition
0
Defining actin: Combining sequence, structure, and functional analysis to propose useful boundaries
0
Identifying circular DNA using short-read mapping
0
How can we identify the common molecular signatures underlying polyphosphate accumulation?
0
Quickly preprocessing and profiling microbial community sequencing data with a Nextflow workflow for metagenomics
0
The known protein universe is phylogenetically biased
0
Leveraging evolution to identify novel organismal models of human biology
0
Phylogenies and biological foundation models
0
An interactive visualization tool for _Amblyomma americanum_ differential expression data
0
Graph neural networks: A unifying predictive model architecture for evolutionary applications
0
Predicting antimicrobial resistance phenotypes across 7,000 _E. coli_ genomes
0
Epistasis and deep learning in quantitative genetics
0
Comparison of spontaneous Raman spectrometers
0
Cross-trait learning with a canonical transformer tops custom attention in genotype–phenotype mapping
0
Do protein language models understand evolution? Mixed evidence from ancestral sequences and ESM2
Get notified about new pubs!
Subscribe to Digest
Navigation
Arcadia Science
Arcadia Terms of Use
Arcadia Privacy Policy
RSS
Contact
info@arcadiascience.com
510-788-1110
© 2025 ARCADIA SCIENCE. ISSN 2998-4084
